openproblems-bio / openproblemsLinks
Formalizing and benchmarking open problems in single-cell genomics
☆410Updated 2 months ago
Alternatives and similar repositories for openproblems
Users that are interested in openproblems are comparing it to the libraries listed below
Sorting:
- Benchmarking analysis of data integration tools☆388Updated last month
- This is the alpha version of the CellOracle package☆392Updated 9 months ago
- Reference mapping for single-cell genomics☆386Updated last month
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆472Updated 2 weeks ago
- Single-cell perturbation analysis☆205Updated last week
- CellRank: dynamics from multi-view single-cell data☆402Updated last month
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆384Updated 2 weeks ago
- Scanpy Tutorials.☆225Updated this week
- A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to repr…☆220Updated 4 months ago
- An overview of algorithms for estimating pseudotime in single-cell RNA-seq data☆428Updated last month
- A tool for semi-automatic cell type classification☆419Updated 2 weeks ago
- RNA Velocity generalized through dynamical modeling☆470Updated 8 months ago
- Graph-linked unified embedding for single-cell multi-omics data integration☆430Updated last week
- tools and notes for spatial omics☆326Updated 8 months ago
- Python package to perform enrichment analysis from omics data.☆234Updated this week
- Single cell perturbation prediction☆322Updated 10 months ago
- 🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.☆239Updated last year
- Models and datasets for perturbational single-cell omics☆167Updated 3 years ago
- Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data☆380Updated 2 months ago
- LIANA+: an all-in-one framework for cell-cell communication☆243Updated last week
- muon is a multimodal omics Python framework☆252Updated last week
- Spatial alignment of single cell transcriptomic data.☆332Updated 4 months ago
- MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological …☆374Updated last year
- Panoramic stitching of single cell data☆292Updated 3 months ago
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆440Updated 4 months ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆548Updated 4 months ago
- A package to help convert different single-cell data formats to each other☆444Updated last year
- A scanpy extension to analyse single-cell TCR and BCR data.☆242Updated this week
- Comparison of methods for trajectory inference on single-cell data 🥇☆216Updated 2 years ago
- Mapping out the coarse-grained connectivity structures of complex manifolds.☆230Updated 5 years ago